Locus 1523

Sequence ID	X_DroMel_CAF1
Location	4,438,141 – 4,438,334
Length	193
Max. P	0.996549

overview

Window 3

Location	4,438,141 – 4,438,261
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	95.66
Mean single sequence MFE	-27.16
Consensus MFE	-21.07
Energy contribution	-21.67
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-1.95
Structure conservation index	0.78
SVM decision value	0.26
SVM RNA-class probability	0.655750
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4438141 120 + 22224390
CGAGCGUUCCCAAGCUCCCCCAGGUCUCGUCUUCAAGUUCCCAGGUUGUUCUCCCUGAUUUUGCUCACAUAAGACCAAGAAUUUUCUUUAUGACAAUUCAUUUGUUCAAUGGGAAUCUUU
.((((........)))).(((((((((.((...((((....((((........))))..))))...))...)))))..(((((.((.....)).)))))..........))))....... ( -27.50)
>DroSec_CAF1 39953 120 + 1
CGAGCGUUCCCAAGCUCCCCCAGGUCUCGUCUUCGAGUUCCCAGGUUGUUCUCCCAGCUUUUGCUCACAUAAGACCAAGAAUUUUCUUUAUGACAAUUCAUUUGUUCAAUGGGAAUCUUU
.((((........)))).(((((((((..(....((((....((((((......))))))..))))..)..)))))..(((((.((.....)).)))))..........))))....... ( -31.10)
>DroSim_CAF1 41385 120 + 1
CGAGCGUUCCCAAGCUCCCCCAGGUCUCGUCUUCGAGUUCCCAGGUUGUUCUCCCAGCUUUUGCUCACAUAAGACCAAGAAUUUUCUUUAUGACAAUUCAUUUGUUCAAUGGGAAUCUUU
.((((........)))).(((((((((..(....((((....((((((......))))))..))))..)..)))))..(((((.((.....)).)))))..........))))....... ( -31.10)
>DroEre_CAF1 41561 119 + 1
CGAGCGUUCCCAAGCUCCCUGA-GUUUCGUCUUUAAGUUCCCAGCUUGUUCUCCCUGCUUUUGCUCACAUAAGACCAAGAAUUUUCUUUAUGACAAUUCAUUUGUUCAAUGGGAAUCUUU
.(((.((((((((((....(((-(((..(((...(((.......((((.(((....((....)).......))).))))......)))...)))))))))...)))...)))))))))). ( -23.72)
>DroYak_CAF1 40575 119 + 1
CGAGCGUUCCCAAGCUCCCUGA-GUUUCGUCUUCCAGUUCCCAGCUUGUUCUCCCUGCUUUUGCUCACAUAAGACCAAGAAUUUUCUUUAUGACAAUUCAUUUGUUCAAUGGGAAUCUUU
.((((........)))).....-.............(((((((.((((.(((....((....)).......))).))))...........((((((.....))).))).))))))).... ( -22.40)
>consensus
CGAGCGUUCCCAAGCUCCCCCAGGUCUCGUCUUCAAGUUCCCAGGUUGUUCUCCCUGCUUUUGCUCACAUAAGACCAAGAAUUUUCUUUAUGACAAUUCAUUUGUUCAAUGGGAAUCUUU
.((((........))))...................(((((((((((.........((....))........))))..(((((.((.....)).)))))..........))))))).... (-21.07 = -21.67 +   0.60)

alignment

secondary structure

dotplot

Window 4

Location	4,438,221 – 4,438,334
Length	113
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	95.85
Mean single sequence MFE	-31.32
Consensus MFE	-29.12
Energy contribution	-28.56
Covariance contribution	-0.56
Combinations/Pair	1.09
Mean z-score	-1.90
Structure conservation index	0.93
SVM decision value	2.71
SVM RNA-class probability	0.996549
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4438221 113 - 22224390
CCUUUGUGAGGCGGGUUGCGCUGAGUCAGAAUUCAG-------AAGUUGGGGAGACAUUAUUUCGCCAUUAUGCAAGCCAAAAGAUUCCCAUUGAACAAAUGAAUUGUCAUAAAGAAAAU
.((((((((.(.((.(((((((((((....))))))-------....(((.((((.....)))).)))...))))).))..........((((.....))))...).))))))))..... ( -30.00)
>DroSec_CAF1 40033 113 - 1
CCUUUGUGAGGCGGGUUGCGCUGAGUCAGAAUUCAG-------AAGUUGGGGAGACAUUAUUUCGCCAUUAUGCAAGCCAAAAGAUUCCCAUUGAACAAAUGAAUUGUCAUAAAGAAAAU
.((((((((.(.((.(((((((((((....))))))-------....(((.((((.....)))).)))...))))).))..........((((.....))))...).))))))))..... ( -30.00)
>DroSim_CAF1 41465 113 - 1
CCUUUGUGAGGCGGGUUGCGCUGAGUCAGAACUCAG-------AAGUUGGGGAGACAUUAUUUCGCCAUUAUGCAAGCCAAAAGAUUCCCAUUGAACAAAUGAAUUGUCAUAAAGAAAAU
.((((((((.(.((.(((((((((((....))))))-------....(((.((((.....)))).)))...))))).))..........((((.....))))...).))))))))..... ( -32.30)
>DroEre_CAF1 41640 120 - 1
CCUUUGUGGCGCGGGUUGCGCUGAGUCAGAAUUCAGAAUUCCGAAGUUGGGGAGACAUUAUUUCGCCAUUAUGCAAGCCAAAAGAUUCCCAUUGAACAAAUGAAUUGUCAUAAAGAAAAU
.(((((((((..((.(((((((((((....)))))).....((((((...(....)...))))))......))))).))..........((((.....))))....)))))))))..... ( -33.80)
>DroYak_CAF1 40654 113 - 1
CCUUUGUGGCGCGGGUUGCGCUGAGUCAGAAUUUAG-------AAGUUGGGGAGACAUUAUUUCGCCAUUAUGCAAGCCAAAAGAUUCCCAUUGAACAAAUGAAUUGUCAUAAAGAAAAU
.(((((((((..((.(((((((((((....))))))-------....(((.((((.....)))).)))...))))).))..........((((.....))))....)))))))))..... ( -30.50)
>consensus
CCUUUGUGAGGCGGGUUGCGCUGAGUCAGAAUUCAG_______AAGUUGGGGAGACAUUAUUUCGCCAUUAUGCAAGCCAAAAGAUUCCCAUUGAACAAAUGAAUUGUCAUAAAGAAAAU
.((((((((...((.(((((((((((....))))))...........(((.((((.....)))).)))...))))).))..........((((.....)))).....))))))))..... (-29.12 = -28.56 +  -0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:12:09 2006